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MCL coexpression mm9:285: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0004177!4.87e-32!29;UBERON:0005057!4.87e-32!29;UBERON:0002193!9.64e-31!48;UBERON:0002405!9.64e-31!48;UBERON:0002390!2.25e-30!45;UBERON:0003061!2.25e-30!45;UBERON:0000077!1.34e-25!35;UBERON:0002370!4.81e-24!23;UBERON:0000974!4.81e-24!23;UBERON:0004807!4.81e-24!23;UBERON:0005058!4.81e-24!23;UBERON:0003351!4.81e-24!23;UBERON:0009113!4.81e-24!23;UBERON:0003295!4.81e-24!23;UBERON:0009722!4.81e-24!23;UBERON:0005562!4.81e-24!23;UBERON:0007690!4.81e-24!23;UBERON:0006562!7.25e-23!24;UBERON:0003408!7.25e-23!24;UBERON:0001557!7.25e-23!24;UBERON:0001042!7.25e-23!24;UBERON:0008814!7.25e-23!24;UBERON:0009145!7.25e-23!24;UBERON:0000065!8.41e-21!41;UBERON:0001004!3.55e-20!42;UBERON:0000072!7.42e-20!27;UBERON:0000063!2.30e-14!35;UBERON:0007811!7.49e-14!36;UBERON:0001041!8.41e-14!80;UBERON:0003081!1.16e-13!87;UBERON:0000153!6.17e-11!43;UBERON:0005911!3.37e-10!69;UBERON:0000926!9.34e-10!120;UBERON:0004120!9.34e-10!120;UBERON:0006603!9.34e-10!120;UBERON:0002106!4.29e-09!6;UBERON:0004457!4.29e-09!6;UBERON:0000042!4.29e-09!6;UBERON:0004854!4.29e-09!6;UBERON:0009034!4.29e-09!6;UBERON:0002095!4.29e-09!6;UBERON:0004782!4.29e-09!6;UBERON:0003281!4.29e-09!6;UBERON:0009664!4.29e-09!6;UBERON:0002296!4.29e-09!6;UBERON:0005602!4.29e-09!6;UBERON:0001179!4.29e-09!6;UBERON:0006293!4.29e-09!6;UBERON:0002384!5.32e-08!46;UBERON:0004921!8.34e-08!114;UBERON:0003929!1.08e-07!55;UBERON:0002368!1.15e-07!60;UBERON:0001007!1.45e-07!116;UBERON:0001555!1.45e-07!116;UBERON:0007026!1.45e-07!116;UBERON:0004119!2.47e-07!118;UBERON:0000925!2.47e-07!118;UBERON:0006595!2.47e-07!118;UBERON:0003887!3.27e-07!10;UBERON:0002530!9.04e-07!65
|ontology_enrichment_uberon=UBERON:0004177!4.87e-32!29;UBERON:0005057!4.87e-32!29;UBERON:0002193!9.64e-31!48;UBERON:0002405!9.64e-31!48;UBERON:0002390!2.25e-30!45;UBERON:0003061!2.25e-30!45;UBERON:0000077!1.34e-25!35;UBERON:0002370!4.81e-24!23;UBERON:0000974!4.81e-24!23;UBERON:0004807!4.81e-24!23;UBERON:0005058!4.81e-24!23;UBERON:0003351!4.81e-24!23;UBERON:0009113!4.81e-24!23;UBERON:0003295!4.81e-24!23;UBERON:0009722!4.81e-24!23;UBERON:0005562!4.81e-24!23;UBERON:0007690!4.81e-24!23;UBERON:0006562!7.25e-23!24;UBERON:0003408!7.25e-23!24;UBERON:0001557!7.25e-23!24;UBERON:0001042!7.25e-23!24;UBERON:0008814!7.25e-23!24;UBERON:0009145!7.25e-23!24;UBERON:0000065!8.41e-21!41;UBERON:0001004!3.55e-20!42;UBERON:0000072!7.42e-20!27;UBERON:0000063!2.30e-14!35;UBERON:0007811!7.49e-14!36;UBERON:0001041!8.41e-14!80;UBERON:0003081!1.16e-13!87;UBERON:0000153!6.17e-11!43;UBERON:0005911!3.37e-10!69;UBERON:0000926!9.34e-10!120;UBERON:0004120!9.34e-10!120;UBERON:0006603!9.34e-10!120;UBERON:0002106!4.29e-09!6;UBERON:0004457!4.29e-09!6;UBERON:0000042!4.29e-09!6;UBERON:0004854!4.29e-09!6;UBERON:0009034!4.29e-09!6;UBERON:0002095!4.29e-09!6;UBERON:0004782!4.29e-09!6;UBERON:0003281!4.29e-09!6;UBERON:0009664!4.29e-09!6;UBERON:0002296!4.29e-09!6;UBERON:0005602!4.29e-09!6;UBERON:0001179!4.29e-09!6;UBERON:0006293!4.29e-09!6;UBERON:0002384!5.32e-08!46;UBERON:0004921!8.34e-08!114;UBERON:0003929!1.08e-07!55;UBERON:0002368!1.15e-07!60;UBERON:0001007!1.45e-07!116;UBERON:0001555!1.45e-07!116;UBERON:0007026!1.45e-07!116;UBERON:0004119!2.47e-07!118;UBERON:0000925!2.47e-07!118;UBERON:0006595!2.47e-07!118;UBERON:0003887!3.27e-07!10;UBERON:0002530!9.04e-07!65
|tfbs_overrepresentation_for_novel_motifs=0.0719497,0.113576,0.479262,0.305194,0.105881,0.666391,0.148388,0.0406596,0.127399,0.035152,0.123115,0.435892,0.0407809,0.472235,0.120486,0,0.288299,0.462025,0.00617798,0.383901,0.402143,0.0103985,0.155233,0.4799,0.0641363,0.514394,0.348681,0.109159,0.0373647,0.0499757,0.101869,0.367297,0.240975,0.968273,0.0292504,0.770487,0.0203772,0.139162,0.19064,0.779644,0.762628,0.340818,0.442687,0.291794,0.313096,0.290621,0.230231,0.117576,0.21866,0.150553,0.27523,0.190239,0.351522,0.485586,0.500658,0.483088,0.365068,0.13388,0.321113,0.158905,0.351242,0.196469,0.290657,0.266898,0.167068,0.297204,0.621417,0.947606,0.347523,0.807939,0.198593,0.685855,0.00298617,0.529888,0.164178,0.269451,0.156994,0.222296,0.337634,0.183497,0.447591,0.301475,1.08073,0.228423,0.430864,0.000880497,4.45232,0.226536,0.233678,1.10402,0.684894,0.435043,0.377655,0.268849,0.01524,0.537649,0.646914,0.379937,0.23041,0.299156,1.42245,0.367072,0.470627,0.275672,0.274889,0.10429,0.320303,0.369494,0.188807,0.047957,0.242899,0.472153,0.049218,0.125988,0.691366,0.248416,0.021911,0.0930994,0.28928,0.420265,0.534627,0.251614,0.174046,0.221668,0.741383,0.340552,0.153289,0.372164,0.620047,0.509539,0.456151,0.0877659,0.593454,0.972702,0.711262,0.0669813,0.0756323,0.105244,0.6661,1.46501,1.07314,0.625675,0.535988,0.375761,0.270089,0.341439,0.656561,1.42588,1.42081,0.10738,0.387255,0.000196948,1.22153,1.18157,0.168063,0.558342,0.558081,0.567187,0.906151,0.0755084,0.674799,1.09925,0.903461,0.0679754,0.738132,2.17123,0.0891063,0.140344,0.00198064
|tfbs_overrepresentation_for_novel_motifs=0.0719497,0.113576,0.479262,0.305194,0.105881,0.666391,0.148388,0.0406596,0.127399,0.035152,0.123115,0.435892,0.0407809,0.472235,0.120486,0,0.288299,0.462025,0.00617798,0.383901,0.402143,0.0103985,0.155233,0.4799,0.0641363,0.514394,0.348681,0.109159,0.0373647,0.0499757,0.101869,0.367297,0.240975,0.968273,0.0292504,0.770487,0.0203772,0.139162,0.19064,0.779644,0.762628,0.340818,0.442687,0.291794,0.313096,0.290621,0.230231,0.117576,0.21866,0.150553,0.27523,0.190239,0.351522,0.485586,0.500658,0.483088,0.365068,0.13388,0.321113,0.158905,0.351242,0.196469,0.290657,0.266898,0.167068,0.297204,0.621417,0.947606,0.347523,0.807939,0.198593,0.685855,0.00298617,0.529888,0.164178,0.269451,0.156994,0.222296,0.337634,0.183497,0.447591,0.301475,1.08073,0.228423,0.430864,0.000880497,4.45232,0.226536,0.233678,1.10402,0.684894,0.435043,0.377655,0.268849,0.01524,0.537649,0.646914,0.379937,0.23041,0.299156,1.42245,0.367072,0.470627,0.275672,0.274889,0.10429,0.320303,0.369494,0.188807,0.047957,0.242899,0.472153,0.049218,0.125988,0.691366,0.248416,0.021911,0.0930994,0.28928,0.420265,0.534627,0.251614,0.174046,0.221668,0.741383,0.340552,0.153289,0.372164,0.620047,0.509539,0.456151,0.0877659,0.593454,0.972702,0.711262,0.0669813,0.0756323,0.105244,0.6661,1.46501,1.07314,0.625675,0.535988,0.375761,0.270089,0.341439,0.656561,1.42588,1.42081,0.10738,0.387255,0.000196948,1.22153,1.18157,0.168063,0.558342,0.558081,0.567187,0.906151,0.0755084,0.674799,1.09925,0.903461,0.0679754,0.738132,2.17123,0.0891063,0.140344,0.00198064
|tfbs_overrepresentation_jaspar=MA0003.1;0.000340596,MA0004.1;0.305832,MA0006.1;0.116541,MA0007.1;0.286303,MA0009.1;1.0091,MA0014.1;0.000515153,MA0017.1;0.141194,MA0019.1;0.248074,MA0024.1;0.353393,MA0025.1;0.589418,MA0027.1;1.95996,MA0028.1;0.12595,MA0029.1;0.892913,MA0030.1;0.341346,MA0031.1;0.313542,MA0038.1;1.57236,MA0040.1;1.03158,MA0041.1;0.0583487,MA0042.1;0.197223,MA0043.1;0.469769,MA0046.1;0.418434,MA0048.1;0.03589,MA0050.1;1.74431,MA0051.1;2.28529,MA0052.1;0.405693,MA0055.1;0.175042,MA0056.1;0,MA0057.1;0.830691,MA0058.1;0.189695,MA0059.1;0.781081,MA0060.1;0.151517,MA0061.1;0.380864,MA0063.1;0,MA0066.1;0.165937,MA0067.1;0.690195,MA0068.1;0.0311649,MA0069.1;0.405974,MA0070.1;0.397975,MA0071.1;0.110717,MA0072.1;0.391015,MA0073.1;1.6966,MA0074.1;0.443199,MA0076.1;0.160227,MA0077.1;0.373365,MA0078.1;0.580287,MA0081.1;0.0645216,MA0083.1;0.469091,MA0084.1;0.999346,MA0087.1;0.432564,MA0088.1;0.032575,MA0089.1;0,MA0090.1;0.555288,MA0091.1;0.32331,MA0092.1;0.0757649,MA0093.1;0.314468,MA0095.1;0,MA0098.1;0,MA0100.1;0.137416,MA0101.1;0.467124,MA0103.1;0.983312,MA0105.1;0.277094,MA0106.1;0.592733,MA0107.1;0.338168,MA0108.2;0.264668,MA0109.1;0,MA0111.1;0.98999,MA0113.1;1.04561,MA0114.1;0.0743624,MA0115.1;0.472164,MA0116.1;0.279815,MA0117.1;0.44472,MA0119.1;0.059082,MA0122.1;0.461557,MA0124.1;0.641584,MA0125.1;0.574947,MA0130.1;0,MA0131.1;0.244817,MA0132.1;0,MA0133.1;0,MA0135.1;0.501131,MA0136.1;2.11441,MA0139.1;0.110897,MA0140.1;0.841406,MA0141.1;0.6904,MA0142.1;0.302401,MA0143.1;0.573785,MA0144.1;0.196833,MA0145.1;0.087554,MA0146.1;0.00112958,MA0147.1;0.216343,MA0148.1;2.23704,MA0149.1;0.061026,MA0062.2;0.701736,MA0035.2;0.432878,MA0039.2;0.122648,MA0138.2;0.239154,MA0002.2;0.653788,MA0137.2;1.99345,MA0104.2;0.272325,MA0047.2;1.56955,MA0112.2;0.271741,MA0065.2;0.273313,MA0150.1;0.598715,MA0151.1;0,MA0152.1;0.172422,MA0153.1;0.515592,MA0154.1;0.0344632,MA0155.1;0.0199387,MA0156.1;3.05693,MA0157.1;1.39445,MA0158.1;0,MA0159.1;0.442699,MA0160.1;0.331527,MA0161.1;0,MA0162.1;8.30714e-05,MA0163.1;0.00147503,MA0164.1;0.921746,MA0080.2;2.36784,MA0018.2;0.162257,MA0099.2;0.234689,MA0079.2;0.217773,MA0102.2;1.04989,MA0258.1;0.340342,MA0259.1;0.07771,MA0442.1;0
}}
}}

Revision as of 11:29, 23 January 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:126758922..126758940,+p1@Arhgap9
Mm9::chr11:117813775..117813794,+p@chr11:117813775..117813794
+
Mm9::chr11:32454966..32454978,+p@chr11:32454966..32454978
+
Mm9::chr12:103606458..103606468,+p@chr12:103606458..103606468
+
Mm9::chr12:103606491..103606531,+p@chr12:103606491..103606531
+
Mm9::chr13:24695113..24695121,+p@chr13:24695113..24695121
+
Mm9::chr13:24695728..24695736,-p6@Gm11346
Mm9::chr13:24696083..24696100,-p3@Gm11346
Mm9::chr13:24696658..24696664,-p5@Gm11346
Mm9::chr15:60018441..60018452,-p@chr15:60018441..60018452
-
Mm9::chr15:60018669..60018688,-p4@uc007vxz.1
Mm9::chr15:60018729..60018738,-p6@uc007vxz.1
Mm9::chr15:60018926..60018938,-p3@uc007vxz.1
Mm9::chr15:60018953..60018970,-p2@uc007vxz.1
Mm9::chr15:60018984..60019018,-p1@uc007vxz.1
Mm9::chr15:80574223..80574268,+p@chr15:80574223..80574268
+
Mm9::chr15:80935429..80935499,-p2@Mkl1
Mm9::chr17:73346089..73346098,+p@chr17:73346089..73346098
+
Mm9::chr17:88802815..88802829,-p@chr17:88802815..88802829
-
Mm9::chr19:11436763..11436778,+p@chr19:11436763..11436778
+
Mm9::chr1:175367343..175367367,-p@chr1:175367343..175367367
-
Mm9::chr1:175367372..175367380,-p@chr1:175367372..175367380
-
Mm9::chr1:89504384..89504397,+p@chr1:89504384..89504397
+
Mm9::chr3:88256290..88256323,-p@chr3:88256290..88256323
-
Mm9::chr4:129488427..129488451,+p5@Ptp4a2
Mm9::chr5:111607677..111607689,-p@chr5:111607677..111607689
-
Mm9::chr6:72943547..72943571,+p@chr6:72943547..72943571
+
Mm9::chr6:72943582..72943617,+p@chr6:72943582..72943617
+
Mm9::chr7:38879614..38879629,+p@chr7:38879614..38879629
+


Enriched pathways on this co-expression cluster<b>Summary:</b><br>Canonical pathway gene sets were compiled from Reactome, Wikipathways and KEGG. For the major signaling pathways, the transcriptionally-regulated genes (downstream targets) were obtained from Netpath. Combined, the canonical pathways and downstream targets totaled 489 human gene sets. The corresponding M. musculus gene sets were inferred by homology using the HomoloGene database. Enrichment for each of the canonical 489 pathways and gene sets included in the co-expression cluster was assessed by the hypergeometric probability. The resulting P values were also then adjusted by the Benjamini-Hochberg method for multiple comparisons.<br><b>Analyst: </b>Emmanuel Dimont<br><br>link to source dataset<br>data

no results for this coexpression

Relative expression of the co-expression cluster over median <br>Analyst:




Enriched sample ontology terms on this co-expression cluster<b>Summary:</b>To summarize promoter activities (expression profile of a TSS region) across ~1000 samples, we performed enrichment analysis based on FANTOM5 Sample Ontology (FF ontology). The question here is “in which type of samples the promoter is more active”. To answer this question, we compared expressions (TPMs) in the samples associated with a sample ontology term and the rest of the samples by using the Mann-Whitney rank sum test. To summarize ontologies enriched in this co-expression cluster, we ran the same analysis on an averaged expression profile of all promoters that make up. <b>Analyst:</b> Hideya Kawaji <br><br>links to source dataset<br><br>cell_data<br>uberon_data<br><br>

Cell Type
Ontology termp-valuen
mature alpha-beta T cell4.48e-209
alpha-beta T cell4.48e-209
immature T cell4.48e-209
mature T cell4.48e-209
immature alpha-beta T cell4.48e-209
CD4-positive, alpha-beta T cell8.00e-188
hematopoietic lineage restricted progenitor cell9.11e-1825
lymphoid lineage restricted progenitor cell1.04e-1712
lymphocyte3.54e-1613
common lymphoid progenitor3.54e-1613
T cell4.43e-1611
pro-T cell4.43e-1611
thymocyte2.40e-136
double negative thymocyte2.40e-136
naive T cell2.40e-136
double-positive, alpha-beta thymocyte2.40e-136
CD4-positive, alpha-beta thymocyte2.40e-136
naive thymus-derived CD4-positive, alpha-beta T cell2.40e-136
DN4 thymocyte2.40e-136
DN1 thymic pro-T cell2.40e-136
DN2 thymocyte2.40e-136
DN3 thymocyte2.40e-136
immature single positive thymocyte2.40e-136
early T lineage precursor2.40e-136
mature CD4 single-positive thymocyte2.40e-136
resting double-positive thymocyte2.40e-136
double-positive blast2.40e-136
CD69-positive double-positive thymocyte2.40e-136
CD69-positive, CD4-positive single-positive thymocyte2.40e-136
CD4-positive, CD8-intermediate double-positive thymocyte2.40e-136
CD24-positive, CD4 single-positive thymocyte2.40e-136
hematopoietic cell4.58e-1332
hematopoietic oligopotent progenitor cell4.58e-1332
hematopoietic stem cell4.58e-1332
angioblastic mesenchymal cell4.58e-1332
hematopoietic multipotent progenitor cell4.58e-1332
nucleate cell9.82e-1316
leukocyte7.39e-1217
nongranular leukocyte7.39e-1217
megakaryocyte progenitor cell9.39e-106
megakaryocyte9.39e-106
connective tissue cell5.32e-0846
mesenchymal cell5.32e-0846

Uber Anatomy
Ontology termp-valuen
hemopoietic organ4.87e-3229
immune organ4.87e-3229
hemolymphoid system9.64e-3148
immune system9.64e-3148
hematopoietic system2.25e-3045
blood island2.25e-3045
mixed endoderm/mesoderm-derived structure1.34e-2535
thymus4.81e-2423
neck4.81e-2423
respiratory system epithelium4.81e-2423
hemolymphoid system gland4.81e-2423
pharyngeal epithelium4.81e-2423
thymic region4.81e-2423
pharyngeal gland4.81e-2423
entire pharyngeal arch endoderm4.81e-2423
thymus primordium4.81e-2423
early pharyngeal endoderm4.81e-2423
pharynx7.25e-2324
gland of gut7.25e-2324
upper respiratory tract7.25e-2324
chordate pharynx7.25e-2324
pharyngeal arch system7.25e-2324
pharyngeal region of foregut7.25e-2324
respiratory tract8.41e-2141
respiratory system3.55e-2042
segment of respiratory tract7.42e-2027
organ segment2.30e-1435
craniocervical region7.49e-1436
foregut8.41e-1480
lateral plate mesoderm1.16e-1387
anterior region of body6.17e-1143
endo-epithelium3.37e-1069
mesoderm9.34e-10120
mesoderm-derived structure9.34e-10120
presumptive mesoderm9.34e-10120
spleen4.29e-096
cavity lining4.29e-096
serous membrane4.29e-096
gastrointestinal system mesentery4.29e-096
stomach region4.29e-096
mesentery4.29e-096
gastrointestinal system serosa4.29e-096
mesentery of stomach4.29e-096
gut mesentery4.29e-096
dorsal mesentery4.29e-096
dorsal mesogastrium4.29e-096
peritoneal cavity4.29e-096
spleen primordium4.29e-096
connective tissue5.32e-0846
subdivision of digestive tract8.34e-08114
gut epithelium1.08e-0755
endocrine gland1.15e-0760
digestive system1.45e-07116
digestive tract1.45e-07116
primitive gut1.45e-07116
endoderm-derived structure2.47e-07118
endoderm2.47e-07118


TFBS overrepresentation<b>Summary:</b>The values shown are the p-values for overrepresentation of the motif in this coexpression cluster. So a small p-value means a strong overrepresentation. <b>Analyst:</b> Michiel de Hoon <br><br>link to source data <br> Novel motifs <br>data <br><br> Jaspar motifs <br>data

Novel motifs




JASPAR motifs


Motifs-log10(p-value)
MA0003.10.000340596
MA0004.10.305832
MA0006.10.116541
MA0007.10.286303
MA0009.11.0091
MA0014.10.000515153
MA0017.10.141194
MA0019.10.248074
MA0024.10.353393
MA0025.10.589418
MA0027.11.95996
MA0028.10.12595
MA0029.10.892913
MA0030.10.341346
MA0031.10.313542
MA0038.11.57236
MA0040.11.03158
MA0041.10.0583487
MA0042.10.197223
MA0043.10.469769
MA0046.10.418434
MA0048.10.03589
MA0050.11.74431
MA0051.12.28529
MA0052.10.405693
MA0055.10.175042
MA0056.10
MA0057.10.830691
MA0058.10.189695
MA0059.10.781081
MA0060.10.151517
MA0061.10.380864
MA0063.10
MA0066.10.165937
MA0067.10.690195
MA0068.10.0311649
MA0069.10.405974
MA0070.10.397975
MA0071.10.110717
MA0072.10.391015
MA0073.11.6966
MA0074.10.443199
MA0076.10.160227
MA0077.10.373365
MA0078.10.580287
MA0081.10.0645216
MA0083.10.469091
MA0084.10.999346
MA0087.10.432564
MA0088.10.032575
MA0089.10
MA0090.10.555288
MA0091.10.32331
MA0092.10.0757649
MA0093.10.314468
MA0095.10
MA0098.10
MA0100.10.137416
MA0101.10.467124
MA0103.10.983312
MA0105.10.277094
MA0106.10.592733
MA0107.10.338168
MA0108.20.264668
MA0109.10
MA0111.10.98999
MA0113.11.04561
MA0114.10.0743624
MA0115.10.472164
MA0116.10.279815
MA0117.10.44472
MA0119.10.059082
MA0122.10.461557
MA0124.10.641584
MA0125.10.574947
MA0130.10
MA0131.10.244817
MA0132.10
MA0133.10
MA0135.10.501131
MA0136.12.11441
MA0139.10.110897
MA0140.10.841406
MA0141.10.6904
MA0142.10.302401
MA0143.10.573785
MA0144.10.196833
MA0145.10.087554
MA0146.10.00112958
MA0147.10.216343
MA0148.12.23704
MA0149.10.061026
MA0062.20.701736
MA0035.20.432878
MA0039.20.122648
MA0138.20.239154
MA0002.20.653788
MA0137.21.99345
MA0104.20.272325
MA0047.21.56955
MA0112.20.271741
MA0065.20.273313
MA0150.10.598715
MA0151.10
MA0152.10.172422
MA0153.10.515592
MA0154.10.0344632
MA0155.10.0199387
MA0156.13.05693
MA0157.11.39445
MA0158.10
MA0159.10.442699
MA0160.10.331527
MA0161.10
MA0162.18.30714e-05
MA0163.10.00147503
MA0164.10.921746
MA0080.22.36784
MA0018.20.162257
MA0099.20.234689
MA0079.20.217773
MA0102.21.04989
MA0258.10.340342
MA0259.10.07771
MA0442.10
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